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Sample GSM2587049 Query DataSets for GSM2587049
Status Public on Jul 24, 2017
Title ES-Empty vector_serum/Lif 1
Sample type SRA
 
Source name mESCs cultured in SL
Organism Mus musculus
Characteristics strain: C57BL/7
tissue: mESCs
age: 25-36
genotype: PRDM15+/+
Treatment protocol Empty Vector
Growth protocol Serum+Lif
Extracted molecule total RNA
Extraction protocol RNA libraries were prepared for sequencing using standard Illumina protocols
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description ES_ETOH 1 serum/lif 1
Data processing The sequenced reads were mapped tomm9 build of the human genome using TopHat version 1.1.4 with the aligner Bowtie 0.12.7 with their default parameters except –m 1 and –segment-mismatches 2.
The mapped reads were further manipulated by removing the reads that mapped to multiple locations (-q 0) using SAMtools
FPKMs were calculated by Cufflink (2.2.1)
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample.
 
Submission date Apr 24, 2017
Last update date Apr 20, 2020
Contact name Jingxian Zhang
E-mail(s) zhangjingxian.nus@gmail.com
Organization name Institute of Molecular and Cell Biology (IMCB), A-Star, Singapore
Department IMCB
Street address 61 Biopolis Drive Proteos
City Singapore
State/province Singpaore
ZIP/Postal code 138673
Country Singapore
 
Platform ID GPL19057
Series (2)
GSE73693 Whole transcriptome sequencing of WT and PRDM15KO mESCs
GSE73694 PRDM15 safeguards naïve pluripotency by transcriptionally regulating WNT and MAPK/ERK signaling
Relations
BioSample SAMN06821044
SRA SRX2754637

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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